Exploring a 7-gene prognostic model based on ferroptosis for efficiently guiding immunotherapy in melanoma patients

Sung, 2021, Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries, CA A Cancer J Clin, 71, 209, 10.3322/caac.21660 Schadendorf, 2018, Melanoma. Lancet., 392, 971, 10.1016/S0140-6736(18)31559-9 Endres, 2018, Markers usefulness in the melanic metastatic cellular epitops identification in the sentinel lymph node, Rev. Chim.[internet], 69, 3675, 10.37358/RC.18.12.6817 Sivasankarapillai, 2020, Overview of the anticancer activity of withaferin A, an active constituent of the Indian ginseng Withania somnifera, Environ Sci Pollut Res Int, 27, 26025, 10.1007/s11356-020-09028-0 Bungau, 2021, Withaferin A-A promising phytochemical compound with multiple results in dermatological diseases, Molecules, 26, 2407, 10.3390/molecules26092407 Shain, 2015, The genetic evolution of melanoma from precursor lesions, N Engl J Med, 373, 1926, 10.1056/NEJMoa1502583 Labi, 2015, How cell death shapes cancer, Cell Death Dis, 6, 10.1038/cddis.2015.20 Bano, 2022, Ferroptosis: a new road towards cancer management, Molecules, 27, 2129, 10.3390/molecules27072129 Talty, 2022, The role of ferroptosis in melanoma, Pigment Cell Melanoma Res, 35, 18, 10.1111/pcmr.13009 Bebber, 2020, Ferroptosis in cancer cell biology, Cancers, 12, 164, 10.3390/cancers12010164 Mou, 2019, Ferroptosis, a new form of cell death: opportunities and challenges in cancer, J Hematol Oncol, 12, 34, 10.1186/s13045-019-0720-y Lu, 2017, The role of ferroptosis in cancer development and treatment response, Front Pharmacol, 8, 992, 10.3389/fphar.2017.00992 Friedmann Angeli, 2019, Ferroptosis at the crossroads of cancer-acquired drug resistance and immune evasion, Nat Rev Cancer, 19, 405, 10.1038/s41568-019-0149-1 Wang, 2019, CD8(+) T cells regulate tumour ferroptosis during cancer immunotherapy, Nature, 569, 270, 10.1038/s41586-019-1170-y Lang, 2019, Radiotherapy and immunotherapy promote tumoral lipid oxidation and ferroptosis via synergistic repression of SLC7A11, Cancer Discov, 9, 1673, 10.1158/2159-8290.CD-19-0338 Dixon, 2012, Ferroptosis: an iron-dependent form of nonapoptotic cell death, Cell, 149, 1060, 10.1016/j.cell.2012.03.042 Sun, 2016, Activation of the p62-Keap1-NRF2 pathway protects against ferroptosis in hepatocellular carcinoma cells, Hepatology, 63, 173, 10.1002/hep.28251 Eling, 2015, Identification of artesunate as a specific activator of ferroptosis in pancreatic cancer cells, Oncoscience, 2, 517, 10.18632/oncoscience.160 Ping, 2022, Identification and validation of a ferroptosis-related gene signature for predicting survival in skin cutaneous melanoma, Cancer Med, 10.1002/cam4.4706 Jing, 2022, Ferroptosis-related genes are candidate diagnostic and prognostic biomarkers for skin cutaneous melanoma, Biomarkers Med, 16, 179, 10.2217/bmm-2021-0998 Liu, 2022, Construction and validation of a ferroptosis-related prognostic signature for melanoma based on single-cell RNA sequencing, Front Cell Dev Biol, 10 2015, Genomic classification of cutaneous melanoma, Cell, 161, 1681, 10.1016/j.cell.2015.05.044 Wilkerson, 2010, ConsensusClusterPlus: a class discovery tool with confidence assessments and item tracking, Bioinformatics, 26, 1572, 10.1093/bioinformatics/btq170 Thorsson, 2018, The immune landscape of cancer, Immunity, 48, 812, 10.1016/j.immuni.2018.03.023 Cibulskis, 2013, Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples, Nat Biotechnol, 31, 213, 10.1038/nbt.2514 Chen, 2018, Profiling tumor infiltrating immune cells with CIBERSORT, Methods Mol Biol, 1711, 243, 10.1007/978-1-4939-7493-1_12 Yoshihara, 2013, Inferring tumour purity and stromal and immune cell admixture from expression data, Nat Commun, 4, 2612, 10.1038/ncomms3612 Ritchie, 2015, Limma powers differential expression analyses for RNA-sequencing and microarray studies, Nucleic Acids Res, 43, e47, 10.1093/nar/gkv007 Yu, 2012, clusterProfiler: an R package for comparing biological themes among gene clusters, OMICS, 16, 284, 10.1089/omi.2011.0118 Hänzelmann, 2013, GSVA: gene set variation analysis for microarray and RNA-seq data, BMC Bioinf, 14, 7, 10.1186/1471-2105-14-7 Barbie, 2009, Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1, Nature, 462, 108, 10.1038/nature08460 Friedman, 2010, Regularization paths for generalized linear models via coordinate descent, J Stat Software, 33, 1 Zhang, 2016, Variable selection with stepwise and best subset approaches, Ann Transl Med, 4, 136, 10.21037/atm.2016.03.35 Liu, 2017, HisgAtlas 1.0: a human immunosuppression gene database, Database (Oxford), 10.1093/database/bax094 Song, 2015, Decision tree methods: applications for classification and prediction, Shanghai Arch Psychiatry, 27, 130 Van Calster, 2018, Reporting and interpreting decision curve analysis: a guide for investigators, Eur Urol, 74, 796, 10.1016/j.eururo.2018.08.038 Kovacsovics-Bankowski, 1995, A phagosome-to-cytosol pathway for exogenous antigens presented on MHC class I molecules, Science, 267, 243, 10.1126/science.7809629 Makrilia, 2009, Cell adhesion molecules: role and clinical significance in cancer, Cancer Invest, 27, 1023, 10.3109/07357900902769749 Gagliardi, 2019, Aldo-keto reductases protect metastatic melanoma from ER stress-independent ferroptosis, Cell Death Dis, 10, 902, 10.1038/s41419-019-2143-7 Yang, 2020, Nedd4 ubiquitylates VDAC2/3 to suppress erastin-induced ferroptosis in melanoma, Nat Commun, 11, 433, 10.1038/s41467-020-14324-x Khalil, 2016, The future of cancer treatment: immunomodulation, CARs and combination immunotherapy, Nat Rev Clin Oncol, 13, 394, 10.1038/nrclinonc.2016.65 Golstein, 2018, An early history of T cell-mediated cytotoxicity, Nat Rev Immunol, 18, 527, 10.1038/s41577-018-0009-3 Wang, 2021, Gene expression and immune infiltration in melanoma patients with different mutation burden, BMC Cancer, 21, 379, 10.1186/s12885-021-08083-1 Raskov, 2021, Cytotoxic CD8(+) T cells in cancer and cancer immunotherapy, Br J Cancer, 124, 359, 10.1038/s41416-020-01048-4 Bae, 2019, TTYH1 and TTYH2 serve as lrrc8a-independent volume-regulated anion channels in cancer cells, Cells, 8, 10.3390/cells8060562 Zhao, 2015, SEMA6A is a prognostic biomarker in glioblastoma, Tumour Biol, 36, 8333, 10.1007/s13277-015-3584-y Baugher, 2005, Rac1 and Rac3 isoform activation is involved in the invasive and metastatic phenotype of human breast cancer cells, Breast Cancer Res, 7, R965, 10.1186/bcr1329 Cheng, 2020, RAC3 promotes proliferation, migration and invasion via PYCR1/JAK/STAT signaling in bladder cancer, Front Mol Biosci, 7, 218, 10.3389/fmolb.2020.00218 Musumeci, 2015, Hck inhibitors as potential therapeutic agents in cancer and HIV infection, Curr Med Chem, 22, 1540, 10.2174/0929867322666150209152057 Poh, 2017, Inhibition of hematopoietic cell Kinase activity suppresses myeloid cell-mediated colon cancer progression, Cancer Cell, 31, 563, 10.1016/j.ccell.2017.03.006 Halvorsen, 2016, Maraviroc decreases CCL8-mediated migration of CCR5(+) regulatory T cells and reduces metastatic tumor growth in the lungs, OncoImmunology, 5, 10.1080/2162402X.2016.1150398 Weiss, 2019, Immunotherapy of melanoma: facts and hopes, Clin Cancer Res, 25, 5191, 10.1158/1078-0432.CCR-18-1550 Schadendorf, 2015, Pooled analysis of long-term survival data from phase II and phase III trials of ipilimumab in unresectable or metastatic melanoma, J Clin Oncol, 33, 1889, 10.1200/JCO.2014.56.2736 Ascierto, 2019, Survival outcomes in patients with previously untreated BRAF wild-type Advanced melanoma treated with nivolumab therapy: three-year follow-up of a randomized phase 3 trial, JAMA Oncol, 5, 187, 10.1001/jamaoncol.2018.4514 Long, 2018, 4-year survival and outcomes after cessation of pembrolizumab (pembro) after 2-years in patients (pts) with ipilimumab (ipi)-naive advanced melanoma in KEYNOTE-006, J Clin Oncol, 36, 10.1200/JCO.2018.36.15_suppl.9503